The dynamics and interactions of respiratory pathogen carriage among French pilgrims during the 2018 Hajj.

Abstract:

:We conducted this study to describe the dynamics of the acquisition of respiratory pathogens, their potential interactions and risk factors for possible lower respiratory tract infection symptoms (LRTI) among French pilgrims during the 2018 Hajj. Each participant underwent four successive systematic nasopharyngeal swabs before and during their stay in Saudi Arabia. Carriage of the main respiratory pathogens was assessed by PCR. 121 pilgrims were included and 93.4% reported respiratory symptoms during the study period. The acquisition of rhinovirus, coronaviruses and Staphylococcus aureus occurred soon after arrival in Saudi Arabia and rates decreased gradually after days 5 and 6. In contrast, Streptococcus pneumoniae and Klebsiella pneumoniae carriage increased progressively until the end of the stay in Saudi Arabia. Haemophilus influenzae and Moraxella catarrhalis carriage increased starting around days 12 and 13, following an initial clearance. Influenza viruses were rarely isolated. We observed an independent positive mutual association between S. aureus and rhinovirus carriage and between H. influenzae and M. catarrhalis carriage. Dual carriage of H. influenzae and M. catarrhalis was strongly associated with S. pneumoniae carriage (OR = 6.22). Finally, our model showed that M. catarrhalis carriage was negatively associated with K. pneumoniae carriage. Chronic respiratory disease was associated with symptoms of LRTI. K. pneumoniae, M. catarrhalis-S. aureus and H. influenzae-rhinovirus dual carriage was associated with LRTI symptoms. Our data suggest that RTIs at the Hajj are a result of complex interactions between a number of respiratory viruses and bacteria.

journal_name

Emerg Microbes Infect

authors

Hoang VT,Dao TL,Ly TDA,Belhouchat K,Chaht KL,Gaudart J,Mrenda BM,Drali T,Yezli S,Alotaibi B,Fournier PE,Raoult D,Parola P,de Santi VP,Gautret P

doi

10.1080/22221751.2019.1693247

subject

Has Abstract

pub_date

2019-01-01 00:00:00

pages

1701-1710

issue

1

issn

2222-1751

journal_volume

8

pub_type

杂志文章
  • Aetiology of acute meningoencephalitis in Cambodian children, 2010-2013.

    abstract::Acute meningoencephalitis (AME) is associated with considerable morbidity and mortality in children in developing countries. Clinical specimens were collected from children presenting with AME at two Cambodian paediatric hospitals to determine the major aetiologies associated with AME in the country. Cerebrospinal flu...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2017.15

    authors: Horwood PF,Duong V,Laurent D,Mey C,Sothy H,Santy K,Richner B,Heng S,Hem S,Cheval J,Gorman C,Dussart P,de Jong MD,Kerleguer A,Guillard B,Murgue B,Lecuit M,de Lamballerie X,Farrar JJ,Tarantola A,Eloit M,Buchy P

    更新日期:2017-05-24 00:00:00

  • Identification and genetic characterization of a novel parvovirus associated with serum hepatitis in horses in China.

    abstract::A novel equine parvovirus, equine parvovirus-hepatitis (EqPV-H), was first discovered in a horse that died of equine serum hepatitis in the USA in 2018. EqPV-H was shown to be a novel etiological agent associated with equine serum hepatitis. Following this initial report, no additional studies on EqPV-H have been publ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-018-0174-2

    authors: Lu G,Sun L,Ou J,Xu H,Wu L,Li S

    更新日期:2018-10-23 00:00:00

  • Accurate serology for SARS-CoV-2 and common human coronaviruses using a multiplex approach.

    abstract::Serology is a crucial part of the public health response to the ongoing SARS-CoV-2 pandemic. Here, we describe the development, validation and clinical evaluation of a protein micro-array as a quantitative multiplex immunoassay that can identify S and N-directed SARS-CoV-2 IgG antibodies with high specificity and sens...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1813636

    authors: van Tol S,Mögling R,Li W,Godeke GJ,Swart A,Bergmans B,Brandenburg A,Kremer K,Murk JL,van Beek J,Wintermans B,Reimerink J,Bosch BJ,Reusken C

    更新日期:2020-12-01 00:00:00

  • Perception of the 2020 SARS-CoV-2 pandemic among medical professionals in Germany: results from a nationwide online survey.

    abstract::Background: The COVID-19 pandemic represents an unprecedented global challenge and implicates a wide range of burden on medical professionals. Here, we evaluated the perception of the COVID-19 pandemic among medical professionals in Germany. Methods: A total of n = 2827 medical professionals participated in an online ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1785951

    authors: Paffenholz P,Peine A,Hellmich M,Paffenholz SV,Martin L,Luedde M,Haverkamp M,Roderburg C,Marx G,Heidenreich A,Trautwein C,Luedde T,Loosen SH

    更新日期:2020-12-01 00:00:00

  • Cumulative acquisition of pathogenicity islands has shaped virulence potential and contributed to the emergence of LEE-negative Shiga toxin-producing Escherichia coli strains.

    abstract::Shiga toxin-producing Escherichia coli (STEC) are foodborne pathogens causing severe gastroenteritis, which may lead to hemolytic uremic syndrome. The Locus of Enterocyte Effacement (LEE), a Pathogenicity Island (PAI), is a major determinant of intestinal epithelium attachment of a group of STEC strains; however, the ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1595985

    authors: Montero DA,Canto FD,Velasco J,Colello R,Padola NL,Salazar JC,Martin CS,Oñate A,Blanco J,Rasko DA,Contreras C,Puente JL,Scheutz F,Franz E,Vidal RM

    更新日期:2019-01-01 00:00:00

  • Avian influenza A H5N1 virus: a continuous threat to humans.

    abstract::We report the first case of severe pneumonia due to co-infection with the emerging avian influenza A (H5N1) virus subclade 2.3.2.1 and Mycoplasma pneumoniae. The patient was a returning traveller who had visited a poultry market in South China. We then review the epidemiology, virology, interspecies barrier limiting p...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1038/emi.2012.24

    authors: To KK,Ng KH,Que TL,Chan JM,Tsang KY,Tsang AK,Chen H,Yuen KY

    更新日期:2012-09-01 00:00:00

  • Genetic diversity and host adaptation of avian H5N1 influenza viruses during human infection.

    abstract::The continuing pandemic threat posed by avian influenza A/H5N1 viruses calls for improved insights into their evolution during human infection. We performed whole genome deep sequencing of respiratory specimens from 44 H5N1-infected individuals from Indonesia and found substantial within-host viral diversity. At nearl...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1575700

    authors: Welkers MRA,Pawestri HA,Fonville JM,Sampurno OD,Pater M,Holwerda M,Han AX,Russell CA,Jeeninga RE,Setiawaty V,de Jong MD,Eggink D

    更新日期:2019-01-01 00:00:00

  • Characterization of anti-MERS-CoV antibodies against various recombinant structural antigens of MERS-CoV in an imported case in China.

    abstract::The first imported case of Middle East respiratory syndrome (MERS) in China recently occurred, allowing for the characterization of antibody titers in a series of the patient's sera using the following methods based on recombinant viral structural antigens: inactivated MERS coronavirus (MERS-CoV) enzyme-linked immunos...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2016.114

    authors: Wang W,Wang H,Deng Y,Song T,Lan J,Wu G,Ke C,Tan W

    更新日期:2016-11-09 00:00:00

  • Emergence of human babesiosis along the border of China with Myanmar: detection by PCR and confirmation by sequencing.

    abstract::Babesiosis is a tick-borne, zoonotic disease caused by Babesia spp. Two cases of babesiosis were detected by nested polymerase chain reaction (PCR) in Yunnan province, China, and further confirmed by molecular assay. The blood smears showed intraerythrocytic ring form and tetrads typical of small B. microti. In both c...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2014.55

    authors: Zhou X,Li SG,Wang JZ,Huang JL,Zhou HJ,Chen JH,Zhou XN

    更新日期:2014-08-01 00:00:00

  • Clinical observation and management of COVID-19 patients.

    abstract::Three leading infectious disease experts in China were invited to share their bedside observations in the management of COVID-19 patients. Professor Taisheng Li was sent to Wuhan to provide frontline medical care. He depicts the clinical course of SARS-CoV-2 infection. Furthermore, he observes the significant abnormal...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1741327

    authors: Li T,Lu H,Zhang W

    更新日期:2020-12-01 00:00:00

  • Identification of a novel broadly HIV-1-neutralizing antibody from a CRF01_AE-infected Chinese donor.

    abstract::The isolation and characterization of monoclonal broadly neutralizing antibodies (nAbs) from natural HIV-1-infected individuals play very important roles in understanding nAb responses to HIV-1 infection and designing vaccines and therapeutics. Many broadly nAbs have been isolated from individuals infected with HIV-1 ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-018-0175-1

    authors: Ju B,Li D,Ren L,Hou J,Hao Y,Liang H,Wang S,Zhu J,Wei M,Shao Y

    更新日期:2018-11-01 00:00:00

  • A host-based whole genome sequencing study reveals novel risk loci associated with severity of influenza A(H1N1)pdm09 infection.

    abstract::Influenza A(H1N1)pdm09 virus has remained in a seasonal circulation since being recognized in 2009. Although it followed a mild course in most patients, in others it caused a series of severe clinical illnesses. Epidemiologic studies have implicated that host factors have a major influence on the disease severity of i...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1870412

    authors: Li M,Chen Y,Chen T,Hu S,Chen L,Shen L,Li F,Yang J,Sun Y,Wang D,He L,Qin S,Shu Y

    更新日期:2021-12-01 00:00:00

  • Dengue virus and the host innate immune response.

    abstract::Dengue virus (DENV) is a mosquito-borne Flavivirus that is endemic in many tropical and sub-tropical countries where the transmission vectors Aedes spp. mosquitoes resides. There are four serotypes of the virus. Each serotype is antigenically different, meaning they elicit heterologous antibodies. Infection with one s...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1038/s41426-018-0168-0

    authors: Uno N,Ross TM

    更新日期:2018-10-10 00:00:00

  • Converting monoclonal antibody-based immunotherapies from passive to active: bringing immune complexes into play.

    abstract::Monoclonal antibodies (mAbs), which currently constitute the main class of biotherapeutics, are now recognized as major medical tools that are increasingly being considered to fight severe viral infections. Indeed, the number of antiviral mAbs developed in recent years has grown exponentially. Although their direct ef...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1038/emi.2016.97

    authors: Lambour J,Naranjo-Gomez M,Piechaczyk M,Pelegrin M

    更新日期:2016-08-17 00:00:00

  • Predominance and high antibiotic resistance of the emerging Clostridium difficile genotypes NAPCR1 and NAP9 in a Costa Rican hospital over a 2-year period without outbreaks.

    abstract::Clostridium difficile is the major causative agent of nosocomial antibiotic-associated diarrhea. In a 2009 outbreak of C. difficile-associated diarrhea that was recorded in a major Costa Rican hospital, the hypervirulent NAP1 strain (45%) predominated together with a local genotype variant (NAPCR1, 31%). Both strains ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2016.38

    authors: López-Ureña D,Quesada-Gómez C,Montoya-Ramírez M,del Mar Gamboa-Coronado M,Somogyi T,Rodríguez C,Rodríguez-Cavallini E

    更新日期:2016-05-11 00:00:00

  • Diversity and role of cave-dwelling hematophagous insects in pathogen transmission in the Afrotropical region.

    abstract::The progressive anthropization of caves for food resources or economic purposes increases human exposure to pathogens that naturally infect cave-dwelling animals. The presence of wild or domestic animals in the immediate surroundings of caves also may contribute to increasing the risk of emergence of such pathogens. S...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1038/emi.2017.6

    authors: Obame-Nkoghe J,Leroy EM,Paupy C

    更新日期:2017-04-12 00:00:00

  • Comparison of the virulence and transmissibility of canine H3N2 influenza viruses and characterization of their canine adaptation factors.

    abstract::Recent canine influenza outbreaks have raised concerns about the generation of pathogenic variants that may pose a threat to public health. Here, we examine avian-like H3N2 canine influenza viruses (CIVs) isolated from 2009 to 2013 in South Korea from dogs. Phylogenetic analysis revealed that these viruses are closely...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-017-0013-x

    authors: Lee IW,Kim YI,Lim GJ,Kwon HI,Si YJ,Park SJ,Kim EH,Kim SM,Nguyen HD,Song MS,Choi YK

    更新日期:2018-03-07 00:00:00

  • IFITM3 affects the level of antibody response after influenza vaccination.

    abstract::Interferon-induced transmembrane protein 3 (IFITM3) as an antiviral factor can inhibit replication of several viruses including influenza virus. A single-nucleotide polymorphism rs12252-C of IFITM3 results in a truncated IFITM3 protein lacking its first 21 amino acids, which is much higher in the Han Chinese populatio...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1756696

    authors: Lei N,Li Y,Sun Q,Lu J,Zhou J,Li Z,Liu L,Guo J,Qin K,Wang H,Zhao J,Li C,Sun L,Wang D,Zhao Z,Shu Y

    更新日期:2020-12-01 00:00:00

  • Genomic epidemiology of erythromycin-resistant Bordetella pertussis in China.

    abstract::Macrolides such as erythromycin are the empirical treatment of Bordetella pertussis infections. China has experienced an increase in erythromycin-resistant B. pertussis isolates since they were first reported in 2013. Here, we undertook a genomic study on Chinese B. pertussis isolates from 2012 to 2015 to elucidate th...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1587315

    authors: Xu Z,Wang Z,Luan Y,Li Y,Liu X,Peng X,Octavia S,Payne M,Lan R

    更新日期:2019-01-01 00:00:00

  • Emergence of multidrug-resistant Mycobacterium tuberculosis of the Beijing lineage in Portugal and Guinea-Bissau: a snapshot of moving clones by whole-genome sequencing.

    abstract::The Beijing genotype comprises a highly disseminated strain type that is frequently associated with multidrug resistant (MDR) tuberculosis (TB) and increased transmissibility but, countries such as Portugal and Guinea-Bissau fall outside the regions phylogeographically associated with this specific genotype. Neverthel...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2020.1774425

    authors: Perdigão J,Silva C,Maltez F,Machado D,Miranda A,Couto I,Rabna P,Florez de Sessions P,Phelan J,Pain A,McNerney R,Hibberd ML,Mokrousov I,Clark TG,Viveiros M,Portugal I

    更新日期:2020-12-01 00:00:00

  • Characterization of swine-origin H1N1 canine influenza viruses.

    abstract::Host switch events of influenza A viruses (IAVs) continuously pose a zoonotic threat to humans. In 2013, swine-origin H1N1 IAVs emerged in dogs soon after they were detected in swine in the Guangxi province of China. This host switch was followed by multiple reassortment events between these H1N1 and previously circul...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1637284

    authors: Wang G,Dos Anjos Borges LG,Stadlbauer D,Ramos I,Bermúdez González MC,He J,Ding Y,Wei Z,Ouyang K,Huang W,Simon V,Fernandez-Sesma A,Krammer F,Nelson MI,Chen Y,García-Sastre A

    更新日期:2019-01-01 00:00:00

  • IL-17 cytokines in immunity and inflammation.

    abstract::Interleukin 17 (IL-17) and its closest relative, IL-17F, have recently drawn much attention in the field of immunology. IL-17 and IL-17F are expressed by a distinct type of T cells, T helper 17 cells and certain other lymphocytes. These cytokines play key regulatory roles in host defense and inflammatory diseases. In ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1038/emi.2013.58

    authors: Jin W,Dong C

    更新日期:2013-09-01 00:00:00

  • A new subtype of eastern tick-borne encephalitis virus discovered in Qinghai-Tibet Plateau, China.

    abstract::Tick-borne encephalitis virus (TBEV) has been classified into three subtypes, namely the European (Eu-TBEV), Far Eastern (FE-TBEV), and Siberian (Sib-TBEV). In this study, we discovered a new subtype of TBEV in wild rodent Marmota himalayana in Qinghai-Tibet Plateau in China, proposed as subtype Himalayan (Him-TBEV). ...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-018-0081-6

    authors: Dai X,Shang G,Lu S,Yang J,Xu J

    更新日期:2018-04-25 00:00:00

  • Adaptive mutation F772S-enhanced p7-NS4A cooperation facilitates the assembly and release of hepatitis C virus and is associated with lipid droplet enlargement.

    abstract::Hepatitis C virus (HCV) infection is a major cause of chronic hepatitis and liver cancer worldwide. Adaptive mutations play important roles in the development of the HCV replicon and its infectious clones. We and others have previously identified the p7 mutation F772S and the co-presence of NS4A mutations in infectiou...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-018-0140-z

    authors: Duan X,Anwar MI,Xu Z,Ma L,Yuan G,Chen Y,Liu X,Xia J,Zhou Y,Li YP

    更新日期:2018-08-08 00:00:00

  • Novel FKS1 and FKS2 modifications in a high-level echinocandin resistant clinical isolate of Candida glabrata.

    abstract::Echinocandin resistance in Candida glabrata poses a serious clinical challenge. The underlying resistance mechanism of a pan-echinocandin-resistant C. glabrata isolate (strain L74) was investigated in this study. FKS mutants carrying specific mutations found in L74 were reconstructed by the Alt-R CRISPR-Cas9 system (F...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1684209

    authors: Hou X,Healey KR,Shor E,Kordalewska M,Ortigosa CJ,Paderu P,Xiao M,Wang H,Zhao Y,Lin LY,Zhang YH,Li YZ,Xu YC,Perlin DS,Zhao Y

    更新日期:2019-01-01 00:00:00

  • Comparative epidemiology of Middle East respiratory syndrome coronavirus (MERS-CoV) in Saudi Arabia and South Korea.

    abstract::MERS-CoV infection emerged in the Kingdom of Saudi Arabia (KSA) in 2012 and has spread to 26 countries. However, 80% of all cases have occurred in KSA. The largest outbreak outside KSA occurred in South Korea (SK) in 2015. In this report, we describe an epidemiological comparison of the two outbreaks. Data from 1299 c...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2017.40

    authors: Chen X,Chughtai AA,Dyda A,MacIntyre CR

    更新日期:2017-06-07 00:00:00

  • Tree shrew as a new animal model to study the pathogenesis of avian influenza (H9N2) virus infection.

    abstract::Outbreaks of avian influenza virus continue to pose threats to human health. Animal models such as the mouse, ferret, and macaque are used to understand the pathogenesis of avian influenza virus infection in humans. We previously reported that the tree shrew (Tupaia belangeri, family Tupaiidae), which is regarded as a...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/s41426-018-0167-1

    authors: Li R,Yuan B,Xia X,Zhang S,Du Q,Yang C,Li N,Zhao J,Zhang Y,Zhang R,Feng Y,Jiao J,Peiris M,Zhong N,Mok CKP,Yang Z

    更新日期:2018-10-10 00:00:00

  • COVID-19 pandemic - an African perspective.

    abstract::The recently emerged novel coronavirus, "severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2)", caused a highly contagious disease called coronavirus disease 2019 (COVID-19). The virus was first reported from Wuhan city in China in December, 2019, which in less than three months spread throughout the globe and...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章,评审

    doi:10.1080/22221751.2020.1775132

    authors: Lone SA,Ahmad A

    更新日期:2020-12-01 00:00:00

  • Culex pipiens quinquefasciatus: a potential vector to transmit Zika virus.

    abstract::Zika virus (ZIKV) has become a threat to global health since the outbreak in Brazil in 2015. Although ZIKV is generally considered an Aedes-transmitted pathogen, new evidence has shown that parts of the virus closely resemble Culex-transmitted viruses. Therefore, it is important to evaluate the competence of Culex spe...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1038/emi.2016.102

    authors: Guo XX,Li CX,Deng YQ,Xing D,Liu QM,Wu Q,Sun AJ,Dong YD,Cao WC,Qin CF,Zhao TY

    更新日期:2016-09-07 00:00:00

  • Different molecular characteristics and antimicrobial resistance profiles of Clostridium difficile in the Asia-Pacific region.

    abstract::Molecular epidemiology of Clostridium difficile infection (CDI) has been extensively studied in North America and Europe; however, limited data on CDI are available in the Asia-Pacific region. A multicentre retrospective study was conducted in this region. C. difficile isolates were subjected to multilocus sequence ty...

    journal_title:Emerging microbes & infections

    pub_type: 杂志文章

    doi:10.1080/22221751.2019.1682472

    authors: Luo Y,Cheong E,Bian Q,Collins DA,Ye J,Shin JH,Yam WC,Takata T,Song X,Wang X,Kamboj M,Gottlieb T,Jiang J,Riley TV,Tang YW,Jin D

    更新日期:2019-01-01 00:00:00